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Open data
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Basic information
Entry | Database: PDB / ID: 7lbl | ||||||
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Title | Structure of Human IgG1 Fc | ||||||
![]() | Ig gamma-1 chain C region | ||||||
![]() | SIGNALING PROTEIN / Effector / IgG / Antibody / Fc | ||||||
Function / homology | ![]() immunoglobulin complex, circulating / immunoglobulin receptor binding / complement activation, classical pathway / antigen binding / antibacterial humoral response / blood microparticle / extracellular exosome / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Fields, J.K. / Sundberg, E.J. | ||||||
![]() | ![]() Title: Silent Antibodies: Generation of Hyperglycosylated FCs to Ablate Effector Functions Authors: Fields, J.K. / Sundberg, E.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 228.5 KB | Display | ![]() |
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PDB format | ![]() | 153.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.2 MB | Display | ![]() |
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Full document | ![]() | 1.2 MB | Display | |
Data in XML | ![]() | 18.5 KB | Display | |
Data in CIF | ![]() | 25.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7lf5C ![]() 7lf9C ![]() 7lfnC ![]() 5jiiS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
NCS oper: (Code: givenMatrix: (-0.959686237414, -0.0642983386562, -0.273620264899), (0.0650239484936, -0.997863011518, 0.00642622495837), (-0.273448737133, -0.0116247103606, 0.961816330839)Vector: - ...NCS oper: (Code: given Matrix: (-0.959686237414, -0.0642983386562, -0.273620264899), Vector: |
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Components
#1: Protein | Mass: 26215.703 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Polysaccharide | Source method: isolated from a genetically manipulated source #3: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.68 Å3/Da / Density % sol: 54.11 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop Details: CRYSTALS GROWN BY MIXING 1 UL OF FC (10 MG/ML IN 10mM HEPES, 75mM NaCl pH 7.4) WITH 1 UL OF PRECIPITANT SOLUTION CONSISTING OF 0.05M Phosphate PH7, 20% PEG 3350 pH 7.4 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N | |||||||||||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | |||||||||||||||||||||
Detector | Type: DECTRIS EIGER X 9M / Detector: PIXEL / Date: Sep 6, 2017 | |||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||
Radiation wavelength | Wavelength: 1.0332 Å / Relative weight: 1 | |||||||||||||||||||||
Reflection | Resolution: 2.13→28.84 Å / Num. obs: 32029 / % possible obs: 99.1 % / Redundancy: 5.9 % / Biso Wilson estimate: 48.79 Å2 / Rmerge(I) obs: 0.048 / Rpim(I) all: 0.021 / Net I/σ(I): 2.28 | |||||||||||||||||||||
Reflection shell |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5JII Resolution: 2.13→28.84 Å / SU ML: 0.3025 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 28.1644 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 59.11 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.13→28.84 Å
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Refine LS restraints |
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Refine LS restraints NCS | Type: Torsion NCS / Rms dev position: 1.53644594574 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: -23.3800525205 Å / Origin y: -1.75236209222 Å / Origin z: 25.410066418 Å
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Refinement TLS group | Selection details: all |